Comprehensively understanding metabolic pathways of protein during the anaerobic digestion of waste activated sludge

The trigger mechanisms and the gene regulatory pathways of organic acid secretion during the vanadium-titanium magnetite tailing bioleaching

The long-term mining of vanadium-titanium (V-Ti) magnetite has generated a large accumulation of tailings, which can lead to metal pollution via microbial bioleaching. Current research has focused on the bioleaching of minerals, and a few studies have explored microbial responses to metals only through limited metabolite concentrations. However, the trigger mechanisms of metal release during the V-Ti magnetite tailing bioleaching and key gene regulatory pathways for organic acid metabolism are still unclear. This study screened a bioleaching fungus from the V-Ti magnetite tailing pond groundwater. The fungus promoted tailing dissolution by secreting more organic acids (808.99 mg L-1) than without tailings (671.11 mg L-1). The released metals were responsible for the difference in organic acid metabolism. The tailing-released Fe, Zn, and V were the triggers for the organic acid secretion via up-regulating the functional genes of citric, formic, and succinic acids in the TCA cycle, Methane metabolism, and D-arginine and D-ornithine metabolisms. Fe and V also led to the accumulation of malic acid through up-regulating functional genes during the conversion of phenylalanine, tyrosine, and glycine. Ni and Cu were the inhibitors by up-regulating related functional genes and promoting the conversion of acetyl-CoA to acetoacetyl-CoA, resulting in a decrease in organic acid concentrations. This study demonstrated the triggering metals of bioleaching and fungal gene regulation pathways, which provide a novel strategy for fungi domestication by considering the up-regulating metals to improve the bioleaching efficiency.

Insights into high ammonia-resistant syntrophic microbiomes and metabolic pathways during continuous anaerobic digestion of cow manure

Understanding microbial responses to ammonia is critical for defining thresholds and ensuring stable operation of anaerobic digestion (AD); however, an understanding of the microbiome's resistance mechanisms to high-total-ammonia-nitrogen (TAN) conditions remains limited. This study determined a TAN threshold of 7 g/L for continuous cow manure AD with increasing TAN levels. TAN was identified as the most critical factor influencing the AD performance, with CH4 production decreasing by > 50 % beyond this level. Additionally, a highly TAN-resistant syntrophic microbiome was identified through network analysis, highlighting key bacteria, Thauera phenolivorans and Fermentimons spp., alongside hydrogenotrophic methanogens. Interestingly, shifts were observed within the hydrogenotrophic methanogen community, transitioning from Methanoculleus bourgensis to Methanoculleus chikugoensis, Methanocorpusculum spp. and Methanobacterium spp. under high-TAN conditions. Significant metabolic pathways specific to high-TAN environments were identified, providing insights into their roles in sustained operation of AD. These findings highlight the performance limitations and functional redundancy under high-TAN conditions.

Specialized genera and niche partitioning promote the biosynthesis of short-chain fatty acids in anaerobic cofermentation of sewage sludge and protein-rich waste

Elucidating the relationships among various microorganisms and their reactions to environmental fluctuations, such as dissolved organic matter (DOM), remains a key objective in the anaerobic cofermentation (ACF) of sewage sludge (SS) and protein-rich waste (PRW); however, this topic is inadequately understood. In this study, the microbial traits associated with the biosynthesis of short-chain fatty acids (SCFAs) were investigated in the ACF of SS in conjunction with four distinct PRWs (pupa, fishmeal, maize gluten, and soybean meal). Compared with those in the SS-only reactor, the first-order rate constants for biosolid dissolution in the SS/PRW reactors were increased by 1.9-4.0-fold. Pupa performed best among the four PRWs in the ACF process, with the solubilization rate increasing from 9.4% (SS-only reactor) to 33.5%. The copious and readily biodegradable DOM created a unique niche for functional microbes, leading to reframing of the microfloral structure. Specialized genera, such as Holophaga, Alistipes, and Geothrix, were responsible for SCFA biosynthesis in the SS/pupa reactor. The highly differentiated, low-redundancy microecosystem constructed in the SS/pupa reactor contributed to the independent functioning of the hydrolyzers and acidogens, resulting in an SCFA yield that was 6.9-fold greater than that in the SS-only reactor. In addition, the ACF of SS/pupa resulted in the genes encoding the NiFe hydrogenase and Wood-Ljungdahl pathway being intact, which promoted the synthesis of SCFAs, especially acetate. These findings offer new insights into the microbiological mechanisms that augment SCFA generation by the ACF of SS/PRW in terms of microorganism fate, metabolic network relationships, and microecosystem niche.

Gene abundance and microbial syntrophy as key drivers of anaerobic digestion revealed through 16S rRNA gene and metagenomic analysis

Genes in microorganisms influence the biological processes in anaerobic digestion (AD). However, key genes involved in the four metabolic steps (hydrolysis, acidogenesis, acetogenesis, and methanogenesis) remain largely unexplored. This study investigated the abundance and distribution of key functional genes in full-scale anaerobic digesters processing food waste (FWDs) and municipal wastewater (MWDs) through 16S rRNA gene and shotgun metagenomic analysis. Our results revealed that FWDs exhibited a higher abundance of key genes in the metabolic steps, despite having significantly lower microbial diversity compared to MWDs. Pathways and genes associated with syntrophic oxidation of acetate (SAO) and butyrate (SBO) were more present in FWDs. SAO potentially used both the conventional reversed Wood-Ljungdahl pathway and its integration with the glycine cleavage system in FWDs, which complements pathways for acetate oxidation under ammonia stress conditions. Similarly, genes associated with SBO (atoB and croR) were notably more prevalent in FWDs compared to MWDs with an 8.4-fold and 108-fold increase, respectively, indicating the adaptation of SBO bacteria to convert butyrate into acetate. The higher abundance of key genes in FWDs was driven by microbes adapting to the feedstock compositions with higher levels of substrate content, volatile fatty acids, and ammonia. This study quantified the genes central to AD metabolism and uncovered the contributions of microbial diversity, gene abundance, syntrophy, and feedstock characteristics to the functionality of AD processes. These findings enhance understanding of the microbial ecology in AD and provide a foundation for developing innovative strategies to enhance biogas production and waste management.

Survival strategies and assembly mechanisms of microbial communities in petroleum-contaminated soils

This study analyzed petroleum-contaminated soils from south and north locations in China to explore the structure, diversity, functional genes and assembly processes of microbial communities' . Compared with soils from south locations, soils from northern regions exhibited elevated pH, total nitrogen (TN), and total petroleum hydrocarbon (TPH) levels. Among these, TN and TPH were the most influential on the microbial community. The dominant phyla for bacteria, archaea, and fungi were Proteobacteria, Thaumarchaeota, and Ascomycota, respectively. Among them, Proteobacteria was strongly correlated with various functional genes including alkB and many aromatics degradation and denitrification genes (r > 0.9, p < 0.01), suggesting that Proteobacteria play an important role in petroleum-contaminated soils. Metabolism in northern regions was more active than that in southern regions. The northern regions showed a pronounced tendency for denitrification, while the southern regions were characterized by acetoclastic methanogenesis. The assembly of microbial communities exhibited regional patterns, the deterministic assembly was more prominent in the northern soils, while the stochastic assembly was evident in the southern soils. Overall, these findings provide a new conceptual framework to understand the biosphere in petroleum-contaminated soil, potentially guiding improved management practices in the environmental remediation.

Biological methane potentials of food waste of different components: Methane yields, production kinetics, and element balance

This study assessed the methane production from food waste (FW) with dominant components of Meat (MFW), Fruit &Veg (VFW), Grain (GFW), Dairy (DFW), and the mixed feed of these components (MixFW). The high protein and lipid content FW (HPLFW) of MFW, DFW, and MixFW showed the methane yields of 337.0 ± 3.0, 307.4 ± 0.8, and 297.1 ± 1.2 ml-CH4/gCOD, respectively, while those for the high carbohydrate content FW (HCFW) of VFW and GFW were 238.3 ± 1.2 and 171.2 ± 0.3 ml-CH4/gCOD, respectively. A modified two-component kinetic (MTK) model was demonstrated to be the best to describe the methane production kinetics of both HPLFW and HCFW types of feeds. The element balance analysis revealed the element formula of the FW feeds and the methane-conversion organic content. The results obtained from this study showed that the high lipid and animal protein content increased the methane yield and biogas methane composition.

Lysozyme coupling protease pretreatment to relieve the humic acid inhibition on excess sludge anaerobic fermentation

The asynchronous dosed protease and lysozyme combination pretreatment was proved to be effective in enhancing the anaerobic fermentation of waste activated sludge (WAS). However, humic acid (HA) in the sludge could interact with hydrolase and restrain the hydrolysis efficiency, thus inhibiting short-chain fatty acids (SCFAs) production. This study investigated the effectiveness and mechanism of enzymatic pretreatment against HA. Results showed that the enzyme cocktail method increased the extracellular bioavailable contents by 34 %, which raised SCFAs production by 89.69 % (1269.65 mg COD /L). The balanced ratio of hydrolysis and fermentation communities suggested that the small molecular organics generated by the hydrolysis community could be sufficiently utilized by fermentation communities. The metabolism of amino acids and glucose was facilitated, and the activities of key enzymes were enhanced. These results clarified the effect of asynchronous enzyme cocktail pretreatment against HA inhibition and contributed to SCFAs production, which offered fresh perspectives on carbon recovery.

Comprehensive study on pilot nitrification-sludge fermentation coupled denitrification system with extended sludge retention time

The sludge fermentation-coupled denitrification process, utilized for sludge reduction and nitrogen removal from wastewater, is frequently hindered by its hydrolysis step's efficacy. This study addresses this limitation by extending the sludge retention time (SRT) to 120 days. As a result, the nitrate removal efficiency (NRE) of the nitrification-sludge fermentation coupled denitrification (NSFD) pilot system increased from 67.1 ± 0.2 % to 96.7 ± 0.1 %, and the sludge reduction efficiency (SRE) rose from 40.2 ± 0.5 % to 62.2 ± 0.9 %. Longer SRT enhanced predation and energy dissipation, reducing intact cells from 99.2 % to 78.0 % and decreasing particle size from 135.2 ± 4.6 μm and 19.4 ± 2.1 μm to 64.5 ± 3.5 μm and 15.5 ± 1.6 μm, respectively. It also created different niches by altering the biofilm's adsorption capacity, with interactions between these niches driving improved performance. In conclusion, extending SRT optimized the microbial structure and enhanced the performance of the NSFD system.

Carbon flow, energy metabolic intensity and metagenomic characteristics of a Fe (III)-enhanced anerobic digestion system during treating swine wastewater

Deep treatment and bioenergy recovery of swine wastewater (SW) are beneficial for constructing a low-carbon footprint and resource-recycling society. In this study, Fe (III) addition from 0 to 600 mg/L significantly increased the methane (CH4) content of the recovered biogas from 61.4 ± 2.0 to 89.3 ± 2.0 % during SW treatment in an anaerobic membrane digestion system. The specific methane yields (SMY) also increased significantly from 0.20 ± 0.05 to 0.29 ± 0.02 L/g COD. Fe (III) and its bio-transformed products which participated in establishing direct interspecific electron transfer (DIET), upregulated the abundance of e-pili and Nicotinamide adenine dinucleotide (NADH), enriched electroactive bacteria. The increase in cellular adenosine triphosphate (cATP) from 6583 to 14,518 ng/gVSS and electron transport system (ETS) from 1468 to 1968 mg/(g·h) promoted the intensity of energy flow and electron flow during anaerobic digestion of SW. Moreover, Fe (III) promoted the hydrolysis and acidification of organic matters, and strengthened the acetoacetic methanogenesis pathway. This study established an approach for harvesting high quality bioenergy from SW and revealed the effects and mechanisms from the view of carbon flow, energy metabolic intensity and metagenomics.

Hydrogen production pathways in Clostridia and their improvement by metabolic engineering

Biological production of hydrogen has a tremendous potential as an environmentally sustainable technology to generate a clean fuel. Among the different available methods to produce biohydrogen, dark fermentation features the highest productivity and can be used as a means to dispose of organic waste biomass. Within this approach, Clostridia have the highest theoretical H2 production yield. Nonetheless, most strains show actual yields far lower than the theoretical maximum: improving their efficiency becomes necessary for achieving cost-effective fermentation processes. This review aims at providing a survey of the metabolic network involved in H2 generation in Clostridia and strategies used to improve it through metabolic engineering. Together with current achievements, a number of future perspectives to implement these results will be illustrated.

Comprehensive insights into the effects of acidogenic off-gas utilization on successive biogas production, microbial community structure and metabolite distribution during two-stage anaerobic digestion

Although two-stage anaerobic digestion (TSAD) technology has been investigated, the mechanisms regarding the impact of acidogenic off-gas (AOG) on successive methane production have not been well addressed. In this study, a novel TSAD system was designed. Food waste, as the main substrate, was co-digested with chicken manure and corn straw. The acidogenic gas beyond atmospheric pressure was introduced into the bottom of the methanogenesis reactor through a stainless steel diffuser. Results showed the addition of AOG increased the methane yield from 435.2 to 597.1 mL/g VSin in successive methanogenesis stage, improved by 37.2 %, and increased the energy yield from 9.0 to 11.3 kJ/g VSsubstrate. However, the theoretical contribution of hydrogenotrophic methanogenesis using H2 contained in AOG was only 15.2 % of the increased methane yield. After the addition of AOG, the decreased levels of ammonia nitrogen and butyrate indicate that the stability of the AD system was improved. The electron transfer system and co-enzyme F420 activity were enhanced; however, the decrease in acetate kinase activity indicates aceticlastic methanogenesis may have been weakened. The microbial diversity and species richness were improved by the added AOG. Methanosarcina was more competitive than Methanothermobacter, enhancing the syntrophic effect. The relative abundance of protein degradation bacteria norank_f_Anaerolineaceae and lipid degradation bacteria Syntrophomonas was increased. Metabolite analysis confirmed that the addition of AOG promoted amino acid metabolism, the biosynthesis of other secondary metabolism and lipid metabolism. The improved degradation of recalcitrant organic components (lipids and proteins) in food waste was responsible for the increased methane yield. This study provides an in-depth understanding of the impact of AOG utilization on successive methane production and has practical implications for the treatment of food waste.

Tannic Acid Modulation of Substrate Utilization, Microbial Community, and Metabolic Traits in Sludge Anaerobic Fermentation for Volatile Fatty Acid Promotion

Anaerobic fermentation is a crucial route to realize effective waste activated sludge (WAS) resource recovery and utilization, while the overall efficiency is commonly restrained by undesirable disruptors (i.e., chemical dewatering agents). This work unveiled the unexpectedly positive effects of biodewatering tannic acid (TA) on the volatile fatty acids (VFAs) biosynthesis during WAS anaerobic fermentation. The total VFAs yield was remarkably increased by 15.6 folds with enriched acetate and butyrate in TA-occurred systems. TA was capable to disintegrate extracellular polymeric substances to promote the overall organics release. However, TA further modulated the soluble proteins structure by hydrogen bonding and hydrophobic interactions, resulting in the decrease of proteins bioavailability and consequential alteration of metabolic substrate feature. These changes reshaped the microbial community and stimulated adaptive regulatory systems in hydrolytic-acidogenic bacteria. The keystone species for carbohydrate metabolism (i.e., Solobacterium and Erysipelotrichaceae) were preferentially enriched. Also, the typical quorum sensing (i.e., enhancing substrate transport) and two-component systems (i.e., sustaining high metabolic activity) were activated to promote the microbial networks connectivity and ecological cooperative behaviors in response to TA stress. Additionally, the metabolic functions responsible for carbohydrate hydrolysis, transmembrane transport, and intracellular metabolism as well as VFA biosynthesis showed increased relative abundance, which maintained high microbial activities for VFAs biosynthesis. This study underscored the advantages of biodewatering TA for WAS treatment in the context of resource recovery and deciphered the interactive mechanisms.

The Impact of Bisphenol A on the Anaerobic Sulfur Transformation: Promoting Sulfur Flow and Toxic H2S Production

Bisphenol A (BPA), as a typical leachable additive from microplastics and one of the most productive bulk chemicals, is widely distributed in sediments, sewers, and wastewater treatment plants, where active sulfur cycling takes place. However, the effect of BPA on sulfur transformation, particularly toxic H2S production, has been previously overlooked. This work found that BPA at environmentally relevant levels (i.e., 50-200 mg/kg total suspended solids, TSS) promoted the release of soluble sulfur compounds and increased H2S gas production by 14.3-31.9%. The tryptophan-like proteins of microbe extracellular polymeric substances (EPSs) can spontaneously adsorb BPA, which is an enthalpy-driven reaction (ΔH = -513.5 kJ mol-1, ΔS = -1.60 kJ mol-1K -1, and ΔG = -19.52 kJ mol-1 at 35 °C). This binding changed the composition and structure of EPSs, which improved the direct electron transfer capacity of EPSs, thereby promoting the bioprocesses of organic sulfur hydrolysis and sulfate reduction. In addition, BPA presence enriched the functional microbes (e.g., Desulfovibrio and Desulfuromonas) responsible for organic sulfur mineralization and inorganic sulfate reduction and increased the abundance of related genes involved in ATP-binding cassette transporters and sulfur metabolism (e.g., Sat and AspB), which promoted anaerobic sulfur transformation. This work deepens our understanding of the interaction between BPA and sulfur transformation occurring in anaerobic environments.

Molecular-Weight-Dependent Degradation of Plastics: Deciphering Host-Microbiome Synergy Biodegradation of High-Purity Polypropylene Microplastics by Mealworms

The biodegradation of polypropylene (PP), a highly persistent nonhydrolyzable polymer, by Tenebrio molitor has been confirmed using commercial PP microplastics (MPs) (Mn 26.59 and Mw 187.12 kDa). This confirmation was based on the reduction of the PP mass, change in molecular weight (MW), and a positive Δδ13C in the residual PP. A MW-dependent biodegradation mechanism was investigated using five high-purity PP MPs, classified into low (0.83 and 6.20 kDa), medium (50.40 and 108.0 kDa), and high (575.0 kDa) MW categories to access the impact of MW on the depolymerization pattern and associated gene expression of gut bacteria and the larval host. The larvae can depolymerize/biodegrade PP polymers with high MW although the consumption rate and weight losses increased, and survival rates declined with increasing PP MW. This pattern is similar to observations with polystyrene (PS) and polyethylene (PE), i.e., both Mn and Mw decreased after being fed low MW PP, while Mn and/or Mw increased after high MW PP was fed. The gut microbiota exhibited specific bacteria associations, such as Kluyvera sp. and Pediococcus sp. for high MW PP degradation, Acinetobacter sp. for medium MW PP, and Bacillus sp. alongside three other bacteria for low MW PP metabolism. In the host transcriptome, digestive enzymes and plastic degradation-related bacterial enzymes were up-regulated after feeding on PP depending on different MWs. The T. molitor host exhibited both defensive function and degradation capability during the biodegradation of plastics, with high MW PP showing a relatively negative impact on the larvae.

Comparison of different sewage sludge pretreatment technologies for improving sludge solubilization and anaerobic digestion efficiency: A comprehensive review

Anaerobic digestion (AD) of sewage sludge reduces organic solids and produces methane, but the complex nature of sludge, especially the difficulty in solubilization, limits AD efficiency. Pretreatments, by destroying sludge structure and promoting disintegration and hydrolysis, are valuable strategies to enhance AD performance. There is a plethora of reviews on sludge pretreatments, however, quantitative comparisons from multiple perspectives across different pretreatments remain scarce. This review categorized various pretreatments into three groups: Physical (ultrasonic, microwave, thermal hydrolysis, electric decomposition, and high pressure homogenization), chemical (acid, alkali, Fenton, calcium peroxide, and ozone), and biological (microaeration, exogenous bacteria, and exogenous hydrolase) pretreatments. The optimal conditions of various pretreatments and their impacts on enhancing AD efficiency were summarized; the effects of different pretreatments on microbial community in the AD system were comprehensively compared. The quantitative comparison based on dissolution degree of COD (DDCOD) indicted that the sludge solubilization performance is in the order of physical, chemical, and biological pretreatments, although with each below 40 % DDCOD. Biological pretreatment, particularly microaeration and exogenous bacteria, excel in AD enhancement. Pretreatments alter microbial ecology, favoring Firmicutes and Methanosaeta (acetotrophic methanogens) over Proteobacteria and Methanobacterium (hydrogenotrophic methanogens). Most pretreatments have unfavorable energy and economic outcomes, with electric decomposition and microaeration being exceptions. On the basis of the overview of the above pretreatments, a full energy and economy assessment for sewage sludge treatment was suggested. Finally, challenges associated with sludge pretreatments and AD were analyzed, and future research directions were proposed. This review may broaden comprehension of sludge pretreatments and AD, and provide an objective basis for the selection of sludge pretreatment technologies.

Deep eutectic solvents pretreatment enhances methane production from anaerobic digestion of waste activated sludge: Effectiveness evaluation and mechanism elucidation

Anaerobic digestion (AD) is a prevalent waste activated sludge (WAS) treatment, and optimizing methane production is a core focus of AD. Two DESs were developed in this study and significantly increased methane production, including choline chloride-urea (ChCl-Urea) 390% and chloride-ethylene glycol (ChCl-EG) 540%. Results showed that ChCl-Urea mainly disrupted extracellular polymeric substances (EPS) structures, aiding in initial sludge solubilization during pretreatment. ChCl-EG, instead, induced sludge self-driven organic solubilization and enhanced hydrolysis and acidification processes during AD process. Based on the extent to which the two DESs promoted AD for methane production, the AD process can be divided into stage Ⅰ and stage Ⅱ. In stage Ⅰ, ChCl-EG promoted methanogenesis more significantly, microbiological analysis showed both DESs enriched aceticlastic methanogens-Methanosarcina. Notably, ChCl-Urea particularly influenced polysaccharide-related metabolism, whereas ChCl-EG targeted protein-related metabolism. In stage Ⅱ, ChCl-Urea was more dominant than ChCl-EG, ChCl-Urea bolstered metabolism and ChCl-EG promoted genetic information processing in this stage. In essence, this study investigated the microbial mechanism of DES-enhanced sludge methanogenesis and provided a reference for future research.

Inhibition of anaerobic digestion by various ammonia sources resulted in subtle differences in metabolite dynamics

The impact of ammonia on anaerobic digestion performance and microbial dynamics has been extensively studied, but the concurrent effect of anions brought by ammonium salt should not be neglected. This paper studied this effect using metabolomics and a time-course statistical framework. Metabolomics provides novel perspectives to study microbial processes and facilitates a more profound understanding at the metabolic level. The advanced statistical framework enables deciphering the complexity of large metabolomics data sets. More specifically, a series of lab-scale batch reactors were set up with different ammonia sources added. Samples of nine time points over the degradation were analyzed with liquid chromatography-mass spectrometry. A filtering procedure was applied to select the promising metabolomic peaks from 1262 peaks, followed by modeling their intensities across time. The metabolomic peaks with similar time profiles were clustered, evidencing the correlation of different biological processes. Differential analysis was performed to seek the differences in metabolite dynamics caused by different anions. Finally, tandem mass spectrometry and metabolite annotation provided further information on the molecular structure and possible metabolic pathways. For example, the consumption of 5-aminovaleric acid, a short-chain fatty acid obtained from l-lysine degradation, was slowed down by phosphates. Overall, by investigating the effect of anions on anaerobic digestion, our study demonstrated the effectiveness of metabolomics in providing detailed information in a set of samples from different experimental conditions. With the statistical framework, the approach enables capturing subtle differences in metabolite dynamics between samples while accounting for the differences caused by time variations.

Changes in Plasma, Urine, and Fecal Metabolome after 16 Weeks of Consuming Dairy With Different Food Matrixes - A Randomized Controlled Trial

SCOPE

Understanding the mode-of-action by which fermented dairy consumption influences health is of interest. The aim of this study is to elucidate the impact of the chemical-physical properties of the dairy matrix and postbiotic effects on the metabolomics response to fermented dairy consumption.

METHODS AND RESULTS

Hundred males (Body Mass Index (BMI) 28.0-45.0 kg m-2, waist circumference ≥ 102 cm) are included in the study. During a 16-week intervention, the study subjects are instructed to consume 400 g per day of either 1) milk, 2) yogurt, 3) heat-treated yogurt, or 4) chemically acidified milk as part of their habitual diet. Nuclear Magnetic Resonance (NMR)-based metabolomics is conducted on plasma, urine, and fecal samples collected before and after the intervention. Both consumption of acidified milk and heat-treated yogurt resulted in changes in the fecal metabolome including decreases in the level of amino acids (leucine, valine, and threonine), and the branched-chain fatty acid (BCFA) isobutyrate that indicated an altered protein putrefaction, and proteolytic metabolism in the gut. In the plasma metabolome, an increased citrate is found for yogurt consumption. No difference in the urine metabolome is found.

CONCLUSIONS

Our metabolomics analyses indicate that consumption of heat-treated yogurt and acidified milk exerted similar effects on the metabolic activity in the gut as yogurt consumption.

Biosynthesis mechanisms of medium-chain carboxylic acids and alcohols in anaerobic microalgae fermentation regulated by pH conditions

Valorization of microalgae into high-value products and drop-in chemicals can reduce our dependence on non-renewable fossil fuels in an environmentally sustainable way. Among the valuable products, medium-chain carboxylic acids (MCCAs) and alcohols are attractive building blocks as fuel precursors. However, the biosynthetic mechanisms of MCCAs and alcohols in anaerobic microalgae fermentation and the regulating role of pH on the microbial structure and metabolism interaction among different functional groups have never been documented. In this work, we systematically investigated the roles of pH (5, 7, and 10) on the production of MCCAs and alcohols in anaerobic microalgae fermentation. The gene-centric and genome-centric metagenomes were employed to uncover the dynamics and metabolic network of the key players in the microbial communities. The results indicated that the pH significantly changed the product spectrum. The maximum production rate of alcohol was obtained at pH 5, while pH 7 was more beneficial for MCCA production. Metagenomic analysis reveals that this differential performance under different pH is attributed to the transformation of microbial guild and metabolism regulated by pH. The composition of various functional groups for MCCA and alcohol production also varies at different pH levels. Finally, a metabolic network was proposed to reveal the microbial interactions at different pH levels and thus provide insights into bioconversion of microalgae to high-value biofuels.IMPORTANCECarboxylate platforms encompass a biosynthesis process involving a mixed and undefined culture, enabling the conversion of microalgae, rich in carbohydrates and protein, into valuable fuels and mitigating the risks associated with algae blooms. However, there is little known about the effects of pH on the metabolic pathways of chain elongation and alcohol production in anaerobic microalgae fermentation. Moreover, convoluted and interdependent microbial interactions encumber efforts to characterize how organics and electrons flow among microbiome members. In this work, we compared metabolic differences among three different pH levels (5, 7, and 10) in anaerobic microalgae fermentation. In addition, genome-centric metagenomic analysis was conducted to reveal the microbial interaction for medium-chain carboxylic acid and alcohol production.

Improved anaerobic sludge fermentation mediated by a tryptophan-degrading consortium: Effectiveness assessment and mechanism deciphering

The hydrolysis of extracellular polymeric substances (EPS) represents a critical bottleneck in the anaerobic fermentation of waste activated sludge (WAS), while tryptophan is identified as an underestimated constituent of EPS. Herein, we harnessed a tryptophan-degrading microbial consortium (TDC) to enhance the hydrolysis efficiency of WAS. At TDC dosages of 5%, 10%, and 20%, a notable increase in SCOD was observed by factors of 1.13, 1.39, and 1.88, respectively. The introduction of TDC improved both the yield and quality of short chain fatty acids (SCFAs), the maximum SCFA yield increased from 590.6 to 1820.2, 1957.9 and 2194.9 mg COD/L, whilst the acetate ratio within SCFAs was raised from 34.1% to 61.2-70.9%. Furthermore, as TDC dosage increased, the relative activity of protease exhibited significant increments, reaching 116.3%, 168.0%, and 266.1%, respectively. This enhancement facilitated WAS solubilization and the release of organic substances from bound EPS into soluble EPS. Microbial analysis identified Tetrasphaera and Soehngenia as key participants in WAS solubilization and the breakdown of protein fraction. Metabolic analysis revealed that TDC triggered the secretion of enzymes associated with amino acid metabolism and fatty acid biosynthesis, thereby fostering the decomposition of proteins and production of SCFAs.

Distinct effects of chemical- and bio- flocculants on the sludge acidogenic fermentation for volatile fatty acids production by affecting the acidogenic steps, microbial community structure and metabolic functions

Flocculants play crucial roles in sludge treatment, while the specific impact of chemical and bio-flocculants on sludge anaerobic fermentation was unknown. This study unveiled the contrasting effects of chitosan (CTS) and poly‑aluminum chloride (PAC) on volatile fatty acids (VFAs) generation during sludge fermentation. CTS supplementation resulted in 17.2 % increase in VFAs production, while PAC exposure led to 7.6 % reduction compared to the control. Further investigation revealed that CTS facilitated sludge solubilization and hydrolysis, thus providing sufficient organic substrates for VFAs generation. Additionally, environmental-friendly CTS exposure positively influenced the abundance and activity of functional anaerobes, as well as the expression of genes associated with VFAs biosynthesis. In contrast, PAC exposure resulted in the formation of larger sludge flocs, which hindered WAS solubilization and hydrolysis. Meanwhile, its potential microbial toxicity also impeded the microbial metabolic activity (i.e., genetic expressions), resulting in unsatisfactory VFAs production.

A novel approach to enhance methane production during anaerobic digestion of waste activated sludge by combined addition of trypsin, nano-zero-valent iron and activated carbon

A novel approach with a combination of trypsin, nano-zero-valent iron (NZVI) and activated carbon (AC) was conducted to promote the methane production of waste activated sludge (WAS) during the anaerobic digestion (AD) processes. Results showed that the combined addition of trypsin-NZVI-AC exhibited the synergistic effect during different AD stages. Trypsin mainly facilitated the hydrolysis process and the acetic acid conversion, while NZVI-AC enhanced the substrate metabolism and the electronic transfer to subsequently produce methane. A dose of 1000 mg/L trypsin was optimal to maximize this synergistic effect. Metagenomic analysis showed that trypsin-NZVI-AC addition effectively improved the relative abundance of acetyl-CoA carboxylase, and then strengthened both acetoclastic methanogenesis (M00357) and hydrogenotrophic methanogenesis (M00567). Hydrogenotrophic methanogens such as Methanobacterium, Methanoculleus, and Methanosarcina were greatly enriched with trypsin-NZVI-AC compared with trypsin or NZVI-AC addition. Moreover, electroactive bacteria G. sulfurreducens and G. metallireducens were also enriched by this method to conduct direct interspecies electron transfer among methanogens, leading to the better improvement of methane production. These findings supply a promising way to optimize the enzyme pretreatment technology and elevate the methanogenic efficiency of WAS.

Revealing an unrecognized role of free ammonia in sulfur transformation during sludge anaerobic treatment

Free ammonia (FA), the unionized form of ammonium, is presented in anaerobic fermentation of waste activated sludge (WAS) at high levels. However, its potential role in sulfur transformation, especially H₂S production, during WAS anaerobic fermentation process was unrecognized previously. This work aims to unveil how FA affects anaerobic sulfur transformation in WAS anaerobic fermentation. It was found that FA significantly inhibited H₂S production. With an increase of FA from 0.04 to 159 mg/L, H₂S production reduced by 69.9%. FA firstly attacked tyrosine-like proteins and aromatic-like proteins in sludge EPSs, with CO groups being responded first, which decreased the percentage of α-helix/(β-sheet + random coil) and destroyed hydrogen bonding networks. Cell membrane potential and physiological status analysis showed that FA destroyed membrane integrity and increased the ratio of apoptotic and necrotic cells. These destroyed sludge EPSs structure and caused cell lysis, thus strongly inhibited the activities of hydrolytic microorganisms and sulfate reducing bacteria. Microbial analysis showed that FA reduced the abundance of functional microbes (e.g., Desulfobulbus and Desulfovibrio) and genes (e.g., MPST, CysP, and CysN) involved in organic sulfur hydrolysis and inorganic sulfate reduction. These findings unveil an actually existed but previously overlooked contributor to H₂S inhibition in WAS anaerobic fermentation.

The modified properties of sludge-based biochar with ferric sulfate and its effectiveness in promoting carbon release from particulate organic matter in rural household wastewater

The scarcity of carbon sources presents a significant challenge for the bio-treatment of rural domestic wastewater (RDW). This paper presented an innovative approach to address this issue by investigating the supplementary carbon source through in-situ degradation of particulate organic matter (POM) facilitated by ferric sulfate modified sludge-based biochar (SBC). To prepare SBC, five different contents of ferric sulfate (0%, 10%, 20%, 25%, and 33.3%) were added to sewage sludge. The results revealed that the pore and surface of SBC were enhanced, providing active sites and functional groups to accelerate the biodegradation of protein and polysaccharide. During the 8-day hydrolysis period, the concentration of soluble chemical oxidation demand (SCOD) increased and peaked (1087-1156 mg L^-1) on the fourth day. The C/N ratio increased from 3.50 (control) to 5.39 (25% ferric sulfate). POM was degraded the five dominant phyla, which were Actinobacteriota, Firmicutes, Synergistota, Proteobacteria, and Bacteroidetes. Although the relative abundance of dominant phyla changed, the metabolic pathway remained unchanged. The leachate of SBC (<20% ferric sulfate) was beneficial for microbes, but an excessive amount of ferric sulfate (33.3% ferric sulfate) could have inhibition effects on bacteria. In conclusion, ferric sulfate modified SBC holds the potential for the carbon degradation of POM in RDW, and further improvements should be made in future studies.

Effects of biochar addition towards the treatment of blackwater in anaerobic dynamic membrane bioreactor (AnDMBR): Comparison among room temperature, mesophilic and thermophilic conditions

Effects of biochar addition on the performance of anaerobic dynamic membrane bioreactor (AnDMBR) under different temperatures for blackwater treatment was investigated. When the organic load ratios (OLR) was 1.0 g COD/L·d, the specific methane yield for the three biochar-amended reactors were 125.7, 148.0 and 182.3 mLCH₄/g COD_removed, respectively. Compare to those digesters without biochar participation, the methane production in the thermophilic reactor with biochar increased by 12% while the other two digesters increased by 6-10%. An analysis of membrane filtration resistance showed a reduction in total resistance (R_t) of 6.2 × 10¹¹-7.3 × 10¹¹ m^-1 when biochar was added to the three reactors. The thermophilic reactors with biochar increased the relative abundance of Methanothermobacter and promoted gene expression of metabolic pathways related to hydrolysis, acid production and methane production. Overall, biochar showed great potential as an inexpensive conductive material to increase methane production with reduced membrane fouling in AnDMBR systems.

Dissimilatory manganese reduction facilitates synergistic cooperation of hydrolysis, acidogenesis, acetogenesis and methanogenesis via promoting microbial interaction during anaerobic digestion of waste activated sludge

Anaerobic digestion (AD) of waste activated sludge (WAS) is commonly limited to poor synergistic cooperation of four stages including hydrolysis, acidogenesis, acetogenesis and methanogenesis. Dissimilatory metal reduction that induced by metal-based conductive materials is promising strategy to regulate anaerobic metabolism with the higher metabolic driving force. In this study, MnO₂ as inducer of dissimilatory manganese reduction (DMnR) was added into WAS-feeding AD system for mediating complicated anaerobic metabolism. The results demonstrated that main operational performances including volatile solid (VS) degradation efficiency and cumulative CH₄ production with MnO₂ dosage of 60 mg/g·VS reached up to maximum 53.6 ± 3.4% and 248.2 ± 10.1 mL/g·VS while the lowest operational performances in control group (38.5 ± 2.8% and 183.5 ± 8.5 mL/g·VS) was originated from abnormal operation of four stages. Furthermore, high-throughput 16 S rRNA pyrosequencing revealed that enrichment of dissimilatory manganese-reducing contributors and methanogens such as Thermovirga, Christensenellaceae_R_7_group and Methanosaeta performed the crucial role in short-chain fatty acids (SCFAs) oxidation and final methanogenesis, which greatly optimized operational environment of hydrolysis, acidogenesis and acetogenesis. More importantly, analysis of functional genes expression proved that abundances of genes encoding enzymes participated in acetate oxidation, direct interspecies electron transfer (DIET) and CO₂ reduction pathway were simultaneously up-regulated with the optimum MnO₂ dosage, suggesting that DMnR with SCFAs oxidation as electron sink could benefit stable operation of four stages via triggering effective DIET-based microbial interaction mode.

Comprehensive insights into the impact of pretreatment on anaerobic digestion of waste active sludge from perspectives of organic matter composition, thermodynamics, and multi-omics

Although various pretreatments have been applied to promote the anaerobic digestion of waste active sludge (WAS), the mechanisms regarding the impact of pretreatment on anaerobic digestion have not been well addressed. In this study, the effects of acid, alkali, and thermal pretreatments on anaerobic digestion of WAS were comprehensively investigated from the perspectives of organic matter composition, thermodynamics, and multi-omics. Results showed acid, alkali, and thermal pretreatments increased the methane production potential of WAS by 53.7%, 98.2%, and 101.8%, respectively, compared with the control. The protein secondary structure was disrupted after pretreatment, with a shift from α-helix and β-sheet to random coil and antiparallel β-sheet/aggregated strands. Thermodynamically, the WAS flocculation process was controlled by the short-range interfacial interactions described by the extended Derjaguin-Landau-Verwey-Overbeek (XDLVO) theory, which was positively correlated (R = 0.97, p < 0.05) with the organic matter solubilization of the WAS. After pretreatment, the flocculation energy barrier of pretreated WAS was 4.1 (acid), 7.0 (alkali) and 7.1 (thermal) times higher than that of the control group, respectively. Multi-omics analysis confirmed that pretreatment promoted amino acids (tryptophan, tyrosine, phenylalanine, aspartate, glutamate) metabolism, energy metabolism (ABC transporters) and vitamin metabolism. Moreover, the comparison of upregulated differentially expressed proteins (DEPs) revealed that for amino acid metabolism, thermal treatment had the best promotion effect; for carbohydrate metabolism, alkali treatment had the best promotion effect; and for lipid metabolism, acid treatment was more advantageous, resulting in different anaerobic digestion efficiencies. This study provides an in-depth understanding of the impact of different pretreatments on WAS anaerobic digestion and has practical implication for the choice of proper pretreatment technology for biosolids.

Integrating metagenomic binning with flux balance analysis to unravel syntrophies in anaerobic CO2 methanation

BACKGROUND

Carbon fixation through biological methanation has emerged as a promising technology to produce renewable energy in the context of the circular economy. The anaerobic digestion microbiome is the fundamental biological system operating biogas upgrading and is paramount in power-to-gas conversion. Carbon dioxide (CO₂) methanation is frequently performed by microbiota attached to solid supports generating biofilms. Despite the apparent simplicity of the microbial community involved in biogas upgrading, the dynamics behind most of the interspecies interaction remain obscure. To understand the role of the microbial species in CO₂ fixation, the biofilm generated during the biogas upgrading process has been selected as a case study. The present work investigates via genome-centric metagenomics, based on a hybrid Nanopore-Illumina approach the biofilm developed on the diffusion devices of four ex situ biogas upgrading reactors. Moreover, genome-guided metabolic reconstruction and flux balance analysis were used to propose a biological role for the dominant microbes.

RESULTS

The combined microbiome was composed of 59 species, with five being dominant (> 70% of total abundance); the metagenome-assembled genomes representing these species were refined to reach a high level of completeness. Genome-guided metabolic analysis appointed Firmicutes sp. GSMM966 as the main responsible for biofilm formation. Additionally, species interactions were investigated considering their co-occurrence in 134 samples, and in terms of metabolic exchanges through flux balance simulation in a simplified medium. Some of the most abundant species (e.g., Limnochordia sp. GSMM975) were widespread (~ 67% of tested experiments), while others (e.g., Methanothermobacter wolfeii GSMM957) had a scattered distribution. Genome-scale metabolic models of the microbial community were built with boundary conditions taken from the biochemical data and showed the presence of a flexible interaction network mainly based on hydrogen and carbon dioxide uptake and formate exchange.

CONCLUSIONS

Our work investigated the interplay between five dominant species within the biofilm and showed their importance in a large spectrum of anaerobic biogas reactor samples. Flux balance analysis provided a deeper insight into the potential syntrophic interaction between species, especially Limnochordia sp. GSMM975 and Methanothermobacter wolfeii GSMM957. Finally, it suggested species interactions to be based on formate and amino acids exchanges. Video Abstract.

Strategy to enhance semi-continuous anaerobic digestion of food waste by combined use of calcium peroxide and magnetite

Optimizing methane production from food waste (FW) efficiently is always a hot topic in the field of anaerobic digestion (AD). In this study we aimed to improve the conversion of organics to methane by using CaO₂ and magnetite to enhance the semi-continuous AD of food waste. Under the organic load of 2.5 g VS/L·d^-1, the specific methane yield was increased from 333.9 mL CH₄/g·VS to 423.4 mL CH₄/g·VS by adding 0.01 g/L CaO₂ with 0.4 g/L magnetite, improving the production of methane from FW. We assessed reactor performance, ORP changes, mass balance, enzyme activities and characterized the metagenomic profile of microorganisms involved in digestion. These microorganisms showed rapid conversion of volatile fatty acids and increased expression of genes related to hydrolysis and acid production. Thus, the addition of CaO₂ and magnetite optimized the relationship between fermentation bacteria and methanogenic archaea to enhance the overall production of methane. Microorganisms evolved unique adaptive mechanisms in the co-operative environment of CaO₂ and magnetite, as their energy metabolism patterns combined those controlled by individual CaO₂ and magnetite addition. This method of combining a micro-aeration environment with conductive materials provides a new perspective for optimizing the AD of FW.